MmuINT0010281 @ mm10
Intron Retention
Gene
ENSMUSG00000047026 | Acsm4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:MGI Symbol;Acc:MGI:2681844]
Coordinates
chr7:119708643-119710422:+
Coord C1 exon
chr7:119708643-119708766
Coord A exon
chr7:119708767-119710341
Coord C2 exon
chr7:119710342-119710422
Length
1575 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
GAAACATGTCCTCTTCATAGGGA
3' ss Score
7.47
Exon sequences
Seq C1 exon
ATATCAATTCAAGAGGCTGCGGCACTGCCTGACAGGAGGGGAGCCACTCAACCCCGAAGTGCTGGAACAGTGGAAGATGCAAACTGGGCTGGAGCTGTACGAGGGCTACGGACAGACCGAAGTG
Seq A exon
GTATGTCTGAGGGACAAAGTTTGTTTAGAAGTTTTTCCTCAGTGGCCACGGGAGATTGGGTACAAGACCCAATCTTGGGTCCAATGTGTGCCAGACGATACCAAAATCCTCCAATGTTCATGTTCCTCATAGGAAATGGAACAGGATTTGCATAGGATTTAAACATATCTTCCTCTATTTTTTAAGTTGATAACCCATGGCACCAAATACAATGCAAAATTGCTATTTAAAATTACCAATTAAATAGTTGCTGTCTGTGTTACTGGCATATAATAGGGGAACAATGCTTGTATATACAATACAGGTCCAATTTTTAAAACAACATACTTCAAAGTTCTTGATTAGTTGATCCCAAAGATACAGAAACTATGTATATGGAGACCTGGCTGTATGTTGGGGATATTCAGCCCTTGGATTGAGCACTGAGTCCTTGAAGTGTCCCACTCATGCTAAAAAAAAAAATCTTCATAGAATTTCTCACAACACTTTGCTGTAAGTAGTTATCATAATTTGTGAATTGCTTAGCTAGGTATGGCTTAAGAAGAAATATGATCGCCCTTCCTGCCTCCTCCCTGCACAGCAGCTAGCTAGATCAGGAAATTTAGGGATTGATGAGTCTGGACCTGAGTGGCTCATCTTTCCATTGCAATGAGAAAGACTTCCCTACCCTTATAACCTCTGGGAGAATCTATTCTAGTGTGCATCCAATGGAACATAGAAGGCATGGTTTTCAGCTTAGTTGTCCTCAGCTAAATCCAGGATATGTCTGTAATTCCAGTACACAGGTGATTAAGGCAAAGGGGCCACACATTCAAGGGTAGCCTCATCTACATCGAGGGCCAAAAGCTAGCTAGCCTCCATTATATCATAATAAGATCTTTAGACCTTGTTTCAAAATTCCAGACAGCAGCAATAAGAAAGAAGTATGGTCCTCAAAACAGCAGTGTAAAAGCCATAGAAAAATGTGGTAGAATGCACACCCTCAGATCCTGCTGAACATCATTGGATCAGAACCTTGGGGGCAAGACTCAAGCATTTGTGTTTTAACAGTGCACTTGGTGACTCTGATAAATAGATCAGCTACTCCAAAAACTTCACCCCAGAAGAATGACCCTGCATTCTGGGAAAATAAGTAAAAACTGAGGGGGGGGAGGAGGGGAGGGGTGCGAATGTGTGTGCATGCATGTGTTAGATAAACACTAAGCCATCTCTCCACTATATATATATATATATATATATATATATATATATATATATGTATATATATATATATACACATATATATTTTTTGAGACAAGTTCTCTCACTGGACCTAGCACTCACCAGTTAGGTTAGACTGGCTGGCCAGTGAGCCAAGAGGTCTACCTGTCTCCAGCTCCTGAGCACTGGGCATACATCTCATAACCACCACACTTGGCTTTTTACCTGAGTGCTGGGGATCAAAGCTCAGGTCCTCATGTTTGATGGCAAGCACTTGATTGACTTAGCCATCTCCTTGGCCCTCAAAACTGAATCTCAAGTTTCATTGTCAGAATTTAGTATATAAAACTTATATGAAACATGTCCTCTTCATAG
Seq C2 exon
GGAATAATTTGCGCCAATCGCAAAGGAGAAGCAATTAAACCAGGTTCCATGGGAAAAGGAGTAGTGCCGTACGATGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047026:ENSMUST00000047045:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(9.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(6.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAATTCAAGAGGCTGCGGC
R:
GCACATCGTACGGCACTACTC
Band lengths:
201-1776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types